Preface
Duccio Medini, Hervé Tettelin
Section 1. Genomic diversity and the pan-genome concept
1.1 -The pan-genome: a data-drivendiscovery in biology
Duccio Medini, Claudio Donati, Rino Rappuoli, Hervé Tettelin
1.2 -The prokaryotic species concept and challenges
Louis-Marie Bobay
1.3 -Bacterial guide on how to design a diversified gene portfolio
Katherine A. Innamorati, Joshua P. Earl, Surya D. Aggarwal, Garth D. Ehrlich, N. Luisa Hiller
1.4 -A review of pan-genome tools and recent studies
George Vernikos
Section2. Evolutionary biology of pan-genomes
2.1 -Structure and dynamics of bacterial populations: pan-genome ecology
Taj Azarian, I-Ting Huang, William P. Hanage
2.2 -Bacterial microevolution and the pan-genome
Florent Lasalle, Xavier Didelot
2.3 -Pan-genomes and selection: the public goods hypothesis
James O. McInerney, Fiona J. Whelan, Maria Rosa Domingo-Sananes, Alan McNally, Mary J. O''Connell
2.4 -A pan-genomic perspective on the emergence, maintenance and predictability of antibiotic resistance
Stephen Wood, Karen Zhu, DefneSurujon, Federico Rosconi, Juan C. Ortiz-Marquez, Tim van Opijnen
Section 3. Pan-genomics: an open, evolving discipline
3.1 -Metapangenome: at the crossroad of pangenomics and metagenomics
Bing Ma, Michael France, Jacques Ravel
3.2 -Pan-genome flux balance analysis towards pan-phenomes
Charles J. Norsigian, Xin Fang, Bernhard O. Palsson, Jonathan M. Monk
3.3 -Bacterial epigenomics: epigenetics in the age of population genomics
Poyin Chen, D.J. Darwin Bandoy, Bart C. Weimer
3.4 -Eukaryotic pan-genomes
Guy-Franck Richard
3.5 -Computational strategies for eukaryotic pan-genome analyses
Zhiqiang Hu, Chaochun Wei, Zhikang Li
